GREMLIN Database
MURD - UDP-N-acetylmuramoylalanine--D-glutamate ligase
UniProt: Q03522 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 451 (391)
Sequences: 17885 (13464)
Seq/√Len: 680.9

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
186_L291_V3.4951.00
244_F287_A2.9451.00
289_I302_V2.6671.00
399_K410_A2.6621.00
137_A308_S2.6451.00
35_V49_A2.6281.00
114_K183_E2.5651.00
298_S301_A2.5511.00
184_I291_V2.5201.00
410_A414_L2.5161.00
186_L287_A2.4591.00
401_V410_A2.4341.00
318_Y326_K2.4221.00
200_T203_N2.3961.00
403_N406_Q2.3881.00
92_E95_K2.3791.00
134_M288_A2.3221.00
92_E96_R2.3041.00
205_E232_R2.2431.00
137_A305_V2.2311.00
134_M292_V2.1941.00
220_K294_T2.1681.00
340_S344_S2.1501.00
199_H203_N2.1301.00
273_E307_T2.1121.00
410_A413_A2.0751.00
375_A414_L2.0251.00
274_V285_I1.9921.00
375_A399_K1.9871.00
106_L110_L1.9811.00
183_E219_D1.9591.00
137_A304_K1.9201.00
138_D301_A1.9111.00
358_D386_L1.8951.00
415_S421_I1.8901.00
349_P419_D1.8891.00
140_Q163_E1.8811.00
209_Q236_A1.8801.00
256_V259_S1.8761.00
52_L78_I1.8681.00
117_G182_P1.8561.00
133_E308_S1.8441.00
246_V279_A1.8391.00
116_I295_A1.8211.00
131_I288_A1.8171.00
117_G169_L1.7871.00
293_K299_N1.7841.00
205_E229_T1.7561.00
212_Y221_A1.7401.00
352_L374_K1.7291.00
351_I414_L1.7211.00
67_S70_D1.7171.00
203_N206_K1.7051.00
132_Y144_I1.7041.00
389_L392_E1.6891.00
318_Y328_Y1.6801.00
90_V94_E1.6761.00
191_F337_L1.6621.00
66_V70_D1.6591.00
383_A386_L1.6551.00
118_I131_I1.6531.00
131_I291_V1.6521.00
220_K242_V1.6191.00
131_I292_V1.6121.00
384_P388_K1.6051.00
225_Q243_P1.5971.00
184_I295_A1.5791.00
132_Y136_K1.5781.00
138_D297_A1.5711.00
285_I306_L1.5641.00
377_L414_L1.5451.00
292_V302_V1.5451.00
220_K240_E1.5331.00
185_S211_V1.5321.00
37_V42_P1.5291.00
321_T326_K1.5241.00
215_Q219_D1.5091.00
341_K344_S1.5081.00
279_A344_S1.5081.00
207_A210_K1.5071.00
135_L166_V1.5061.00
171_S198_H1.5001.00
114_K164_W1.4971.00
389_L393_L1.4831.00
303_K307_T1.4831.00
55_K80_N1.4771.00
37_V43_F1.4691.00
116_I131_I1.4681.00
401_V406_Q1.4651.00
327_F412_F1.4431.00
225_Q250_L1.4341.00
384_P387_E1.4281.00
105_E109_Y1.4261.00
135_L295_A1.4231.00
164_W295_A1.4171.00
301_A304_K1.4131.00
349_P375_A1.4061.00
91_Q94_E1.4061.00
385_K388_K1.4031.00
260_M273_E1.4021.00
223_V241_I1.3951.00
133_E305_V1.3821.00
325_R415_S1.3661.00
344_S369_Y1.3651.00
115_F180_F1.3641.00
292_V297_A1.3621.00
107_A110_L1.3571.00
223_V243_P1.3551.00
378_T387_E1.3501.00
275_V310_T1.3411.00
324_G417_E1.3411.00
222_I294_T1.3391.00
184_I294_T1.3381.00
223_V230_V1.3321.00
176_G179_A1.3281.00
126_T281_N1.3271.00
127_T188_L1.3261.00
130_L276_L1.3241.00
192_D362_G1.3191.00
261_I285_I1.3121.00
367_K370_M1.3051.00
59_V63_E1.3041.00
240_E294_T1.2991.00
406_Q409_S1.2981.00
254_A257_K1.2851.00
224_N283_E1.2811.00
351_I375_A1.2791.00
190_V205_E1.2751.00
377_L410_A1.2681.00
114_K163_E1.2611.00
379_F407_A1.2571.00
365_D368_P1.2521.00
187_I190_V1.2511.00
229_T232_R1.2491.00
339_T424_S1.2481.00
304_K308_S1.2471.00
50_Q53_S1.2451.00
202_E206_K1.2371.00
130_L309_F1.2361.00
349_P416_N1.2331.00
250_L253_G1.2281.00
185_S215_Q1.2251.00
262_M271_L1.2101.00
141_K163_E1.2051.00
263_F289_I1.2011.00
346_F350_V1.1941.00
206_K236_A1.1931.00
131_I186_L1.1931.00
50_Q54_E1.1891.00
281_N284_N1.1891.00
118_I128_T1.1871.00
316_L346_F1.1861.00
175_M178_H1.1851.00
253_G256_V1.1771.00
184_I222_I1.1711.00
242_V294_T1.1681.00
209_Q233_L1.1681.00
181_R219_D1.1681.00
176_G180_F1.1631.00
177_T180_F1.1631.00
44_E49_A1.1611.00
125_T312_V1.1601.00
135_L297_A1.1601.00
246_V283_E1.1561.00
360_G363_F1.1451.00
169_L177_T1.1411.00
313_K317_Q1.1401.00
384_P400_R1.1341.00
304_K307_T1.1321.00
279_A283_E1.1241.00
187_I212_Y1.1231.00
37_V49_A1.1221.00
183_E216_T1.1221.00
318_Y321_T1.1201.00
409_S413_A1.1191.00
242_V290_A1.1191.00
353_L379_F1.1151.00
375_A397_H1.1051.00
134_M302_V1.1011.00
361_N365_D1.0981.00
226_D283_E1.0951.00
206_K210_K1.0921.00
357_L381_Q1.0911.00
260_M271_L1.0871.00
247_S279_A1.0861.00
210_K213_L1.0831.00
340_S369_Y1.0821.00
317_Q329_N1.0811.00
96_R99_P1.0801.00
316_L328_Y1.0801.00
99_P103_E1.0791.00
192_D195_L1.0731.00
377_L407_A1.0711.00
232_R235_E1.0701.00
94_E100_V1.0661.00
130_L285_I1.0641.00
222_I290_A1.0641.00
201_R229_T1.0631.00
105_E108_Y1.0621.00
192_D201_R1.0551.00
69_F89_M1.0541.00
134_M305_V1.0531.00
352_L373_V1.0501.00
138_D305_V1.0491.00
116_I291_V1.0481.00
121_S193_A1.0471.00
223_V234_A1.0451.00
252_Q256_V1.0411.00
158_H161_G1.0401.00
225_Q231_V1.0381.00
365_D369_Y1.0361.00
348_K420_V1.0361.00
269_L272_E1.0271.00
416_N419_D1.0261.00
264_N267_A1.0251.00
213_L236_A1.0221.00
300_E304_K1.0181.00
133_E136_K1.0161.00
94_E97_G1.0161.00
80_N97_G1.0161.00
365_D370_M1.0141.00
135_L164_W1.0121.00
406_Q410_A1.0121.00
270_P303_K1.0071.00
339_T354_A1.0061.00
405_E409_S1.0011.00
297_A301_A1.0001.00
378_T400_R0.9991.00
188_L287_A0.9971.00
105_E110_L0.9951.00
140_Q164_W0.9941.00
210_K214_H0.9941.00
122_N337_L0.9941.00
174_L207_A0.9911.00
187_I233_L0.9901.00
115_F165_I0.9901.00
349_P374_K0.9891.00
351_I377_L0.9841.00
50_Q76_I0.9831.00
366_L369_Y0.9811.00
373_V376_V0.9751.00
351_I419_D0.9731.00
65_P77_L0.9711.00
253_G259_S0.9671.00
40_Q43_F0.9651.00
184_I220_K0.9591.00
387_E400_R0.9591.00
255_Y258_D0.9591.00
215_Q221_A0.9531.00
252_Q259_S0.9531.00
205_E209_Q0.9531.00
203_N207_A0.9521.00
340_S372_H0.9381.00
122_N334_T0.9381.00
226_D245_S0.9351.00
174_L203_N0.9301.00
321_T325_R0.9301.00
91_Q95_K0.9271.00
342_A422_L0.9271.00
69_F77_L0.9251.00
366_L370_M0.9241.00
334_T339_T0.9221.00
399_K414_L0.9191.00
293_K302_V0.9141.00
227_D283_E0.9091.00
402_D406_Q0.9011.00
264_N269_L0.8971.00
172_F197_Y0.8961.00
175_M180_F0.8961.00
328_Y346_F0.8911.00
363_F366_L0.8901.00
132_Y142_A0.8891.00
325_R418_G0.8871.00
175_M179_A0.8841.00
245_S283_E0.8811.00
228_E232_R0.8801.00
114_K295_A0.8761.00
352_L424_S0.8751.00
209_Q213_L0.8731.00
316_L345_A0.8721.00
291_V295_A0.8721.00
362_G365_D0.8691.00
261_I282_L0.8691.00
90_V93_A0.8681.00
119_T208_K0.8661.00
202_E229_T0.8641.00
105_E179_A0.8631.00
314_H329_N0.8621.00
231_V243_P0.8611.00
43_F49_A0.8581.00
117_G211_V0.8561.00
59_V64_H0.8551.00
101_W104_I0.8541.00
254_A259_S0.8531.00
289_I293_K0.8521.00
254_A286_L0.8511.00
202_E205_E0.8491.00
133_E309_F0.8471.00
250_L259_S0.8471.00
337_L341_K0.8461.00
87_N90_V0.8441.00
224_N227_D0.8421.00
368_P372_H0.8401.00
137_A301_A0.8401.00
299_N303_K0.8401.00
344_S372_H0.8391.00
159_A162_D0.8381.00
68_L74_I0.8321.00
262_M268_I0.8321.00
201_R205_E0.8281.00
411_A415_S0.8271.00
221_A237_G0.8251.00
383_A400_R0.8211.00
132_Y143_L0.8201.00
138_D298_S0.8171.00
50_Q78_I0.8171.00
265_G269_L0.8101.00
360_G364_D0.8081.00
85_Y94_E0.8071.00
231_V235_E0.8051.00
55_K81_P0.7991.00
181_R216_T0.7981.00
133_E137_A0.7971.00
321_T324_G0.7971.00
127_T287_A0.7961.00
62_G65_P0.7941.00
42_P53_S0.7911.00
252_Q258_D0.7901.00
343_L352_L0.7901.00
36_A74_I0.7851.00
408_V412_F0.7831.00
383_A387_E0.7831.00
387_E391_N0.7821.00
252_Q255_Y0.7781.00
191_F201_R0.7771.00
289_I299_N0.7731.00
326_K420_V0.7711.00
401_V407_A0.7661.00
221_A239_A0.7661.00
363_F367_K0.7651.00
234_A243_P0.7651.00
363_F370_M0.7641.00
377_L401_V0.7631.00
158_H162_D0.7611.00
64_H67_S0.7591.00
246_V286_L0.7591.00
222_I291_V0.7561.00
391_N394_G0.7551.00
328_Y420_V0.7551.00
375_A379_F0.7541.00
49_A53_S0.7501.00
250_L258_D0.7481.00
174_L206_K0.7471.00
348_K419_D0.7471.00
374_K380_G0.7451.00
373_V379_F0.7441.00
282_L286_L0.7441.00
171_S207_A0.7411.00
297_A302_V0.7391.00
324_G418_G0.7381.00
251_E254_A0.7381.00
250_L254_A0.7381.00
198_H207_A0.7371.00
169_L182_P0.7361.00
206_K209_Q0.7351.00
356_G382_T0.7331.00
355_G425_P0.7291.00
138_D292_V0.7281.00
225_Q230_V0.7271.00
110_L181_R0.7261.00
267_A270_P0.7241.00
302_V305_V0.7241.00
34_Y48_P0.7231.00
127_T288_A0.7221.00
286_L290_A0.7221.00
224_N244_F0.7211.00
269_L303_K0.7211.00
270_P299_N0.7191.00
381_Q402_D0.7161.00
174_L197_Y0.7141.00
106_L109_Y0.7131.00
175_M207_A0.7071.00
231_V234_A0.7061.00
192_D337_L0.7051.00
266_E269_L0.7031.00
358_D385_K0.7021.00
261_I272_E0.6981.00
188_L244_F0.6981.00
115_F167_T0.6971.00
129_T312_V0.6961.00
280_H341_K0.6951.00
222_I242_V0.6941.00
61_C64_H0.6911.00
226_D246_V0.6901.00
88_I92_E0.6891.00
202_E232_R0.6881.00
232_R236_A0.6871.00
374_K379_F0.6871.00
70_D73_Q0.6851.00
378_T398_V0.6851.00
129_T148_I0.6811.00
258_D262_M0.6811.00
79_K90_V0.6801.00
390_G393_L0.6801.00
276_L309_F0.6801.00
190_V201_R0.6791.00
364_D389_L0.6781.00
129_T133_E0.6771.00
323_N417_E0.6761.00
272_E303_K0.6751.00
82_G93_A0.6731.00
53_S61_C0.6721.00
187_I205_E0.6721.00
96_R100_V0.6721.00
265_G270_P0.6661.00
270_P273_E0.6661.00
356_G383_A0.6641.00
326_K348_K0.6641.00
250_L257_K0.6631.00
353_L421_I0.6631.00
404_V408_V0.6631.00
363_F369_Y0.6601.00
289_I303_K0.6571.00
101_W109_Y0.6571.00
252_Q257_K0.6561.00
205_E233_L0.6561.00
351_I411_A0.6551.00
39_D42_P0.6531.00
125_T147_N0.6531.00
279_A282_L0.6531.00
97_G104_I0.6511.00
77_L89_M0.6501.00
353_L423_L0.6491.00
255_Y259_S0.6491.00
340_S365_D0.6471.00
327_F421_I0.6461.00
116_I135_L0.6441.00
52_L97_G0.6441.00
99_P109_Y0.6431.00
103_E106_L0.6411.00
40_Q64_H0.6411.00
132_Y166_V0.6401.00
407_A411_A0.6381.00
320_T326_K0.6361.00
118_I186_L0.6361.00
96_R101_W0.6351.00
42_P50_Q0.6321.00
201_R204_Y0.6291.00
351_I415_S0.6271.00
142_A162_D0.6271.00
93_A96_R0.6261.00
264_N293_K0.6251.00
253_G257_K0.6241.00
390_G395_I0.6241.00
276_L281_N0.6231.00
81_P84_P0.6231.00
113_A165_I0.6221.00
352_L376_V0.6221.00
183_E218_S0.6201.00
51_K55_K0.6191.00
69_F73_Q0.6191.00
97_G100_V0.6181.00
97_G101_W0.6181.00
173_Q197_Y0.6161.00
122_N191_F0.6161.00
353_L407_A0.6151.00
134_M138_D0.6151.00
254_A258_D0.6141.00
35_V44_E0.6131.00
346_F422_L0.6131.00
102_T175_M0.6131.00
225_Q245_S0.6121.00
181_R214_H0.6121.00
342_A424_S0.6111.00
256_V262_M0.6101.00
62_G80_N0.6091.00
251_E257_K0.6091.00
136_K141_K0.6061.00
195_L199_H0.6041.00
392_E395_I0.6031.00
130_L288_A0.6021.00
353_L411_A0.6021.00
379_F404_V0.6011.00
230_V234_A0.6001.00
389_L394_G0.6001.00
364_D368_P0.6001.00
129_T149_G0.6001.00
53_S65_P0.5991.00
322_V325_R0.5981.00
98_I102_T0.5951.00
96_R104_I0.5931.00
131_I166_V0.5931.00
344_S371_K0.5931.00
251_E259_S0.5901.00
49_A61_C0.5871.00
262_M270_P0.5861.00
226_D247_S0.5851.00
289_I306_L0.5851.00
266_E293_K0.5851.00
145_A157_Y0.5831.00
134_M297_A0.5821.00
135_L292_V0.5801.00
360_G385_K0.5801.00
364_D392_E0.5781.00
63_E67_S0.5771.00
374_K416_N0.5771.00
122_N338_A0.5771.00
343_L373_V0.5761.00
142_A145_A0.5751.00
375_A380_G0.5741.00
43_F74_I0.5731.00
367_K389_L0.5731.00
230_V233_L0.5721.00
316_L342_A0.5721.00
65_P69_F0.5711.00
102_T179_A0.5701.00
300_E303_K0.5701.00
101_W106_L0.5691.00
38_N59_V0.5691.00
128_T166_V0.5671.00
260_M270_P0.5671.00
106_L181_R0.5661.00
128_T144_I0.5651.00
388_K392_E0.5631.00
101_W105_E0.5631.00
111_T114_K0.5621.00
388_K391_N0.5621.00
89_M92_E0.5611.00
157_Y161_G0.5591.00
350_V374_K0.5561.00
48_P51_K0.5561.00
172_F196_D0.5551.00
174_L198_H0.5541.00
76_I101_W0.5541.00
278_G281_N0.5531.00
155_V158_H0.5531.00
343_L371_K0.5511.00
141_K162_D0.5501.00
374_K419_D0.5491.00
245_S249_T0.5481.00
327_F423_L0.5471.00
88_I91_Q0.5471.00
34_Y58_E0.5431.00
174_L210_K0.5431.00
333_A339_T0.5431.00
287_A291_V0.5411.00
408_V423_L0.5391.00
77_L93_A0.5381.00
274_V306_L0.5371.00
290_A294_T0.5371.00
195_L200_T0.5361.00
116_I164_W0.5341.00
387_E398_V0.5341.00
102_T176_G0.5341.00
382_T385_K0.5331.00
63_E81_P0.5331.00
237_G241_I0.5321.00
372_H375_A0.5311.00
111_T181_R0.5301.00
119_T187_I0.5291.00
333_A338_A0.5281.00
251_E255_Y0.5261.00
129_T313_K0.5261.00
291_V294_T0.5261.00
126_T130_L0.5241.00
185_S218_S0.5231.00
195_L201_R0.5221.00
363_F427_C0.5210.99
347_D420_V0.5190.99
346_F420_V0.5180.99
299_N302_V0.5170.99
234_A241_I0.5170.99
409_S412_F0.5160.99
265_G271_L0.5150.99
118_I127_T0.5130.99
121_S191_F0.5120.99
323_N412_F0.5100.99
225_Q247_S0.5070.99
301_A305_V0.5060.99
269_L299_N0.5050.99
142_A166_V0.5050.99
68_L73_Q0.5050.99
100_V104_I0.5010.99
348_K418_G0.5010.99
145_A167_T0.5010.99
96_R102_T0.5000.99
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3lk7A 1 0.9867 100 0.18 Contact Map
2x5oA 1 0.9557 100 0.193 Contact Map
4bucA 1 0.9202 100 0.252 Contact Map
1p3dA 1 0.9534 100 0.319 Contact Map
3hn7A 1 0.9468 100 0.321 Contact Map
4hv4A 1 0.9446 100 0.332 Contact Map
4c12A 2 0.9667 100 0.336 Contact Map
3zl8A 1 0.8936 100 0.339 Contact Map
4qdiA 1 0.9246 100 0.345 Contact Map
4cvkA 1 0.9047 100 0.353 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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